#ifndef __ALGORITHM_CIFTI_FIND_CLUSTERS_H__
#define __ALGORITHM_CIFTI_FIND_CLUSTERS_H__

/*LICENSE_START*/
/*
 *  Copyright (C) 2014  Washington University School of Medicine
 *
 *  This program is free software; you can redistribute it and/or modify
 *  it under the terms of the GNU General Public License as published by
 *  the Free Software Foundation; either version 2 of the License, or
 *  (at your option) any later version.
 *
 *  This program is distributed in the hope that it will be useful,
 *  but WITHOUT ANY WARRANTY; without even the implied warranty of
 *  MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
 *  GNU General Public License for more details.
 *
 *  You should have received a copy of the GNU General Public License along
 *  with this program; if not, write to the Free Software Foundation, Inc.,
 *  51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
 */
/*LICENSE_END*/

#include "AbstractAlgorithm.h"

namespace caret {
    
    class AlgorithmCiftiFindClusters : public AbstractAlgorithm
    {
        AlgorithmCiftiFindClusters();
    protected:
        static float getSubAlgorithmWeight();
        static float getAlgorithmInternalWeight();
    public:
        AlgorithmCiftiFindClusters(ProgressObject* myProgObj, const CiftiFile* myCifti,
                                   const float& surfThresh, const float& surfSize, const float& volThresh, const float& volSize,
                                   const int& myDir, CiftiFile* myCiftiOut, const bool& lessThan = false,
                                   const SurfaceFile* myLeftSurf = NULL, const MetricFile* myLeftAreas = NULL,
                                   const SurfaceFile* myRightSurf = NULL, const MetricFile* myRightAreas = NULL,
                                   const SurfaceFile* myCerebSurf = NULL, const MetricFile* myCerebAreas = NULL,
                                   const CiftiFile* roiCifti = NULL, const bool& mergedVol = false, const int& startVal = 1, int* endVal = NULL,
                                   const float& surfSizeRatio = -1.0f, const float& volSizeRatio = -1.0f, const float& surfDistCutoff = -1.0f, const float& volDistCutoff = -1.0f);
        static OperationParameters* getParameters();
        static void useParameters(OperationParameters* myParams, ProgressObject* myProgObj);
        static AString getCommandSwitch();
        static AString getShortDescription();
    };

    typedef TemplateAutoOperation<AlgorithmCiftiFindClusters> AutoAlgorithmCiftiFindClusters;

}

#endif //__ALGORITHM_CIFTI_FIND_CLUSTERS_H__
